Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene75987.t1 | XP_003595099.1 | 98 | 102 | 2 | 0 | 4 | 105 | 143 | 244 | 1.90E-51 | 211.5 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene75987.t1 | P60040 | 87.3 | 102 | 13 | 0 | 4 | 105 | 141 | 242 | 4.5e-49 | 194.9 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene75987.t1 | A0A072VPV6 | 98.0 | 102 | 2 | 0 | 4 | 105 | 174 | 275 | 1.4e-51 | 211.5 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049159 | MS.gene75987 | 0.80291 | 4.48E-49 | -1.69E-46 |
| MS.gene050228 | MS.gene75987 | 0.801397 | 9.18E-49 | -1.69E-46 |
| MS.gene052020 | MS.gene75987 | 0.802595 | 5.21E-49 | -1.69E-46 |
| MS.gene052896 | MS.gene75987 | 0.802577 | 5.25E-49 | -1.69E-46 |
| MS.gene05468 | MS.gene75987 | 0.808449 | 3.08E-50 | -1.69E-46 |
PPI:
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene75987.t1 | MTR_2g038250 | 98.039 | 102 | 2 | 0 | 4 | 105 | 143 | 244 | 8.52e-71 | 211 |
| MS.gene75987.t1 | MTR_1g022385 | 98.039 | 102 | 2 | 0 | 4 | 105 | 174 | 275 | 1.50e-70 | 211 |
| MS.gene75987.t1 | MTR_4g008160 | 89.216 | 102 | 11 | 0 | 4 | 105 | 142 | 243 | 3.90e-65 | 197 |
| MS.gene75987.t1 | MTR_1g022375 | 78.750 | 80 | 17 | 0 | 16 | 95 | 77 | 156 | 1.40e-42 | 137 |
| MS.gene75987.t1 | MTR_7g059170 | 54.902 | 102 | 46 | 0 | 4 | 105 | 145 | 246 | 5.51e-41 | 135 |
| MS.gene75987.t1 | MTR_1g108785 | 53.448 | 58 | 21 | 4 | 46 | 97 | 2 | 59 | 5.73e-12 | 56.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene75987.t1 | AT2G01250 | 87.255 | 102 | 13 | 0 | 4 | 105 | 141 | 242 | 1.62e-64 | 195 |
| MS.gene75987.t1 | AT2G44120 | 85.294 | 102 | 15 | 0 | 4 | 105 | 141 | 242 | 5.82e-64 | 194 |
| MS.gene75987.t1 | AT2G44120 | 85.294 | 102 | 15 | 0 | 4 | 105 | 146 | 247 | 7.72e-64 | 194 |
| MS.gene75987.t1 | AT3G13580 | 84.314 | 102 | 16 | 0 | 4 | 105 | 143 | 244 | 8.13e-63 | 191 |
| MS.gene75987.t1 | AT3G13580 | 84.314 | 102 | 16 | 0 | 4 | 105 | 143 | 244 | 8.13e-63 | 191 |
| MS.gene75987.t1 | AT3G13580 | 84.314 | 102 | 16 | 0 | 4 | 105 | 143 | 244 | 8.13e-63 | 191 |
| MS.gene75987.t1 | AT3G13580 | 84.314 | 102 | 16 | 0 | 4 | 105 | 143 | 244 | 8.13e-63 | 191 |
| MS.gene75987.t1 | AT3G13580 | 84.314 | 102 | 16 | 0 | 4 | 105 | 143 | 244 | 8.13e-63 | 191 |
| MS.gene75987.t1 | AT3G13580 | 84.314 | 102 | 16 | 0 | 4 | 105 | 143 | 244 | 8.13e-63 | 191 |
| MS.gene75987.t1 | AT3G13580 | 84.314 | 102 | 16 | 0 | 4 | 105 | 143 | 244 | 8.13e-63 | 191 |
| MS.gene75987.t1 | AT3G13580 | 84.314 | 102 | 16 | 0 | 4 | 105 | 143 | 244 | 8.13e-63 | 191 |
| MS.gene75987.t1 | AT3G13580 | 84.314 | 102 | 16 | 0 | 4 | 105 | 143 | 244 | 8.13e-63 | 191 |
| MS.gene75987.t1 | AT1G80750 | 50.980 | 102 | 49 | 1 | 5 | 105 | 146 | 247 | 4.36e-29 | 105 |
| MS.gene75987.t1 | AT2G01250 | 72.973 | 37 | 10 | 0 | 4 | 40 | 141 | 177 | 2.67e-11 | 57.4 |
Find 29 sgRNAs with CRISPR-Local
Find 46 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACTCATTAGAAGGATGAATT+AGG | 0.270598 | 7.3:-80649461 | None:intergenic |
| TTTCAAGCTCAAAGCTCCTT+TGG | 0.284641 | 7.3:-80649557 | MS.gene75987:CDS |
| AGTGTTCAATTGCAGGTTCT+TGG | 0.317764 | 7.3:-80649670 | MS.gene75987:intron |
| TTCAAGCTCAAAGCTCCTTT+GGG | 0.329811 | 7.3:-80649556 | MS.gene75987:CDS |
| TTGATCTACAAGCGCGGTTA+TGG | 0.337108 | 7.3:-80650019 | MS.gene75987:CDS |
| TCAATTCTCTAACACTCTTC+AGG | 0.342813 | 7.3:+80650038 | None:intergenic |
| GTGTTCAATTGCAGGTTCTT+GGG | 0.403327 | 7.3:-80649669 | MS.gene75987:intron |
| ACATCAATGAACTCATTAGA+AGG | 0.462677 | 7.3:-80649471 | MS.gene75987:CDS |
| TGAAGTGAGGTCCAACAGTC+AGG | 0.464367 | 7.3:+80649605 | None:intergenic |
| AGATAACTCTATCATTGAAC+AGG | 0.482014 | 7.3:-80649966 | MS.gene75987:intron |
| AAGAGAAATCACTATGTTGA+AGG | 0.489111 | 7.3:-80649520 | MS.gene75987:CDS |
| AAAGGAGCTTTGAGCTTGAA+AGG | 0.504831 | 7.3:+80649559 | None:intergenic |
| GAGAGGCAAACAACTTCCTA+TGG | 0.504947 | 7.3:-80649582 | MS.gene75987:CDS |
| GTCCAACAGTCAGGATCTCA+TGG | 0.506366 | 7.3:+80649614 | None:intergenic |
| ATCCATGAGATCCTGACTGT+TGG | 0.514487 | 7.3:-80649616 | MS.gene75987:CDS |
| TATGTTGAAGGTGGTGATGC+TGG | 0.533299 | 7.3:-80649508 | MS.gene75987:CDS |
| TTGCAGGTTCTTGGGAAACA+TGG | 0.547799 | 7.3:-80649661 | MS.gene75987:intron |
| GCGGTTATGGAAAGGTTGAT+AGG | 0.549876 | 7.3:-80650006 | MS.gene75987:CDS |
| TTCTTCTTCATGCCACCCAA+AGG | 0.554983 | 7.3:+80649541 | None:intergenic |
| AGGTGGTGATGCTGGTAAGA+GGG | 0.564495 | 7.3:-80649500 | MS.gene75987:CDS |
| CTTTGAGCTTGAAAGGCCAT+AGG | 0.568033 | 7.3:+80649566 | None:intergenic |
| AAGCTCAAAGCTCCTTTGGG+TGG | 0.570830 | 7.3:-80649553 | MS.gene75987:CDS |
| TTGTTTGCCTCTCTGAAGTG+AGG | 0.573961 | 7.3:+80649592 | None:intergenic |
| AAGGTGGTGATGCTGGTAAG+AGG | 0.583947 | 7.3:-80649501 | MS.gene75987:CDS |
| CTACAAGCGCGGTTATGGAA+AGG | 0.599869 | 7.3:-80650014 | MS.gene75987:CDS |
| TGGTGATGCTGGTAAGAGGG+AGG | 0.608332 | 7.3:-80649497 | MS.gene75987:CDS |
| AGAAATCACTATGTTGAAGG+TGG | 0.637998 | 7.3:-80649517 | MS.gene75987:CDS |
| AGAGAATTGATCTACAAGCG+CGG | 0.721136 | 7.3:-80650025 | MS.gene75987:CDS |
| TGTTGGACCTCACTTCAGAG+AGG | 0.737396 | 7.3:-80649599 | MS.gene75987:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GAAAAATAGAAAAATTTAAC+CGG | + | chr7.3:80649809-80649828 | None:intergenic | 15.0% |
| AAGAGAAATCACTATGTTGA+AGG | - | chr7.3:80649988-80650007 | MS.gene75987:CDS | 30.0% | |
| ACATCAATGAACTCATTAGA+AGG | - | chr7.3:80650037-80650056 | MS.gene75987:CDS | 30.0% | |
| AGATAACTCTATCATTGAAC+AGG | - | chr7.3:80649542-80649561 | MS.gene75987:CDS | 30.0% | |
| !! | GGTGCTATTATTATTGTTGA+AGG | - | chr7.3:80649775-80649794 | MS.gene75987:intron | 30.0% |
| AACAACTCACATTCTGACTT+TGG | + | chr7.3:80649680-80649699 | None:intergenic | 35.0% | |
| AATAATAGCACCACCATACA+GGG | + | chr7.3:80649767-80649786 | None:intergenic | 35.0% | |
| AATTGGGTAAAGTACAGAGT+CGG | + | chr7.3:80649655-80649674 | None:intergenic | 35.0% | |
| ACATTCTGACTTTGGCAAAT+TGG | + | chr7.3:80649672-80649691 | None:intergenic | 35.0% | |
| AGAAATCACTATGTTGAAGG+TGG | - | chr7.3:80649991-80650010 | MS.gene75987:CDS | 35.0% | |
| ATTGTTGAAGGTTATGTTGC+CGG | - | chr7.3:80649787-80649806 | MS.gene75987:intron | 35.0% | |
| CATTCTGACTTTGGCAAATT+GGG | + | chr7.3:80649671-80649690 | None:intergenic | 35.0% | |
| CTGAACTGTATGACATAGAT+GGG | - | chr7.3:80649616-80649635 | MS.gene75987:CDS | 35.0% | |
| TAATAATAGCACCACCATAC+AGG | + | chr7.3:80649768-80649787 | None:intergenic | 35.0% | |
| TCAATTCTCTAACACTCTTC+AGG | + | chr7.3:80649473-80649492 | None:intergenic | 35.0% | |
| TCTGAACTGTATGACATAGA+TGG | - | chr7.3:80649615-80649634 | MS.gene75987:CDS | 35.0% | |
| AGAGAATTGATCTACAAGCG+CGG | - | chr7.3:80649483-80649502 | MS.gene75987:CDS | 40.0% | |
| AGTGTTCAATTGCAGGTTCT+TGG | - | chr7.3:80649838-80649857 | MS.gene75987:intron | 40.0% | |
| ATAATAGCACCACCATACAG+GGG | + | chr7.3:80649766-80649785 | None:intergenic | 40.0% | |
| CTGACATAGTGTTCAATTGC+AGG | - | chr7.3:80649831-80649850 | MS.gene75987:intron | 40.0% | |
| GTGTTCAATTGCAGGTTCTT+GGG | - | chr7.3:80649839-80649858 | MS.gene75987:intron | 40.0% | |
| TGTGTGATCGAATGAAAGCA+GGG | + | chr7.3:80649587-80649606 | None:intergenic | 40.0% | |
| TTCAAGCTCAAAGCTCCTTT+GGG | - | chr7.3:80649952-80649971 | MS.gene75987:intron | 40.0% | |
| TTTCAAGCTCAAAGCTCCTT+TGG | - | chr7.3:80649951-80649970 | MS.gene75987:intron | 40.0% | |
| !! | AAAGGAGCTTTGAGCTTGAA+AGG | + | chr7.3:80649952-80649971 | None:intergenic | 40.0% |
| ATCCATGAGATCCTGACTGT+TGG | - | chr7.3:80649892-80649911 | MS.gene75987:intron | 45.0% | |
| CTGTGTGATCGAATGAAAGC+AGG | + | chr7.3:80649588-80649607 | None:intergenic | 45.0% | |
| CTTTGAGCTTGAAAGGCCAT+AGG | + | chr7.3:80649945-80649964 | None:intergenic | 45.0% | |
| GAGAGGCAAACAACTTCCTA+TGG | - | chr7.3:80649926-80649945 | MS.gene75987:intron | 45.0% | |
| TTCTTCTTCATGCCACCCAA+AGG | + | chr7.3:80649970-80649989 | None:intergenic | 45.0% | |
| TTGATCTACAAGCGCGGTTA+TGG | - | chr7.3:80649489-80649508 | MS.gene75987:CDS | 45.0% | |
| TTGCAGGTTCTTGGGAAACA+TGG | - | chr7.3:80649847-80649866 | MS.gene75987:intron | 45.0% | |
| ! | GCGGTTATGGAAAGGTTGAT+AGG | - | chr7.3:80649502-80649521 | MS.gene75987:CDS | 45.0% |
| ! | TATGTTGAAGGTGGTGATGC+TGG | - | chr7.3:80650000-80650019 | MS.gene75987:CDS | 45.0% |
| !! | TTGTTTGCCTCTCTGAAGTG+AGG | + | chr7.3:80649919-80649938 | None:intergenic | 45.0% |
| AAGCTCAAAGCTCCTTTGGG+TGG | - | chr7.3:80649955-80649974 | MS.gene75987:intron | 50.0% | |
| CTACAAGCGCGGTTATGGAA+AGG | - | chr7.3:80649494-80649513 | MS.gene75987:CDS | 50.0% | |
| CTTGACCAATGTCCCCTGTA+TGG | - | chr7.3:80649751-80649770 | MS.gene75987:intron | 50.0% | |
| GTCCAACAGTCAGGATCTCA+TGG | + | chr7.3:80649897-80649916 | None:intergenic | 50.0% | |
| TGAAGTGAGGTCCAACAGTC+AGG | + | chr7.3:80649906-80649925 | None:intergenic | 50.0% | |
| TGTTGGACCTCACTTCAGAG+AGG | - | chr7.3:80649909-80649928 | MS.gene75987:intron | 50.0% | |
| ! | AAGGTGGTGATGCTGGTAAG+AGG | - | chr7.3:80650007-80650026 | MS.gene75987:CDS | 50.0% |
| ! | AGGTGGTGATGCTGGTAAGA+GGG | - | chr7.3:80650008-80650027 | MS.gene75987:CDS | 50.0% |
| CACCACCATACAGGGGACAT+TGG | + | chr7.3:80649759-80649778 | None:intergenic | 55.0% | |
| GACCAATGTCCCCTGTATGG+TGG | - | chr7.3:80649754-80649773 | MS.gene75987:intron | 55.0% | |
| ! | TGGTGATGCTGGTAAGAGGG+AGG | - | chr7.3:80650011-80650030 | MS.gene75987:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7.3 | gene | 80649462 | 80650068 | 80649462 | ID=MS.gene75987 |
| chr7.3 | mRNA | 80649462 | 80650068 | 80649462 | ID=MS.gene75987.t1;Parent=MS.gene75987 |
| chr7.3 | exon | 80649967 | 80650068 | 80649967 | ID=MS.gene75987.t1.exon1;Parent=MS.gene75987.t1 |
| chr7.3 | CDS | 80649967 | 80650068 | 80649967 | ID=cds.MS.gene75987.t1;Parent=MS.gene75987.t1 |
| chr7.3 | exon | 80649462 | 80649677 | 80649462 | ID=MS.gene75987.t1.exon2;Parent=MS.gene75987.t1 |
| chr7.3 | CDS | 80649462 | 80649677 | 80649462 | ID=cds.MS.gene75987.t1;Parent=MS.gene75987.t1 |
| Gene Sequence |
| Protein sequence |
